To determine ligand-binding sites of a platelet-activating factor (PAF) receptor, alanine-scanning mutagenesis was carried out. All 23 polar amino acids in the putative 7-transmembrane (TM) domains of a guinea pig PAF receptor were individually replaced with alanine. The ligand-binding properties of mutant receptors were determined after transient expression in COS-7 cells. Mutants in TM II (N58A, D63A), TM III (N100A, T101A, S104A) and TM VII (D289A) displayed higher PAF-binding affinities than seen with the wild-type receptor. In contrast, mutants in TM V (H188A), TM VI (H248A, H249A, Q252A), and TM VII (Q276A, T278A) showed lower affinities. Representative mutants were then stably expressed in Chinese hamster ovary cells to observe PAF-induced cellular signals (arachidonate release, phosphatidylinositol hydrolysis, adenylyl cyclase inhibition). An N100A mutant with the highest affinity was constitutively active and was responsive to lyso-PAF, an inactive derivative of PAF. One nanomolar PAF induced no signals in low affinity mutants, an EC 50 value for the wild-type receptor. Three histidines (His-188, His-248, His-249) might form a binding pocket for the phosphate group of PAF, since zinc effectively inhibited ligand binding. Based on these results, a three-dimensional molecular model of PAF and its receptor was generated using bacteriorhodopsin as a reference protein.Platelet-activating factor (PAF), 1 is a potent phospholipid mediator with diverse physiological actions on a wide variety of cells and tissues. PAF is thought to play important roles in allergic disorders, inflammation, shock, and some diseases and also to have effects on the reproductive, cardiovascular, and central nervous systems (1-4). Despite the highly hydrophobic structure with a glycerophospholipid skeleton, PAF binds to a cell surface receptor, which was first cloned from a guinea pig lung cDNA library (5). The PAF receptor, with a seven-transmembrane (TM) topology like that of rhodopsin, belongs to a G protein-coupled receptor (GPCR) superfamily. PAF receptor homologs in four mammalian species (guinea pig, human, rat, and mouse) have been reported (6 -12). The PAF receptors couple with various second messenger systems including activation of phospholipase A 2 , C, and D; activation of mitogenactivated protein kinase, phosphatidylinositol 3-kinase, and tyrosine kinases; and inhibition of adenylyl cyclase, thus exerting pleiotropic effects (13-15).To date, a large body of information regarding ligand (agonist and antagonist)-binding characteristics of GPCRs represented by -adrenergic receptors has been obtained (16), and this greatly contributes to effective clinical applications. Various PAF receptor antagonists have been developed as antiallergic and antiinflammatory drugs, but little is known of ligand-binding sites in the cloned PAF receptors. Most GPCR agonists are considered to bind to a hydrophobic core surrounded by seven-TM ␣-helices with electrostatic and hydrophobic force. We designed experiments using alanine-scanning muta...